mouseBrainParcellation: Mouse brain parcellation

In ANTsX/ANTsRNet: Neural Networks for Medical Image Processing

Mouse brain parcellation

Description

Perform brain extraction of mouse T2 MRI

Usage

mouseBrainParcellation(
  image,
  mask = NULL,
  returnIsotropicOutput = FALSE,
  whichParcellation = c("nick"),
  antsxnetCacheDirectory = NULL,
  verbose = FALSE
)

Arguments

image	input 3-D brain image (or list of images for multi-modal scenarios).
mask	Brain mask. If not specified, one is estimated using ANTsXNet mouse brain extraction.
returnIsotropicOutput	The network actually learns an interpolating function specific to the mouse brain. Setting this to true, the output images are returned isotropically resampled.
whichParcellation	Brain parcellation type: "nick": Label 0:background Label 1:CSF Label 2:gray matter Label 3:white matter Label 4:deep gray matter Label 5:brain stem Label 6:cerebellum
antsxnetCacheDirectory	destination directory for storing the downloaded template and model weights. Since these can be resused, if is.null(antsxnetCacheDirectory), these data will be downloaded to the subdirectory ~/.keras/ANTsXNet/.
verbose	print progress.

Value

brain probability mask

Author(s)

Tustison NJ

Examples

## Not run: 
library( ANTsRNet )
library( keras )

image <- antsImageRead( "brain.nii.gz" )
parcellation <- mouseBrainParcellation( image, modality = "t2" )

## End(Not run)

ANTsX/ANTsRNet documentation built on April 28, 2024, 12:16 p.m.